chore(master): release MPRAsnakeflow 0.4.0

[github-actions]

🤖 I have created a release beep boop

0.4.0 (2024-11-26)

⚠ BREAKING CHANGES

• versioned config (#140)
• latest development for new release (#133)

Features

• Add assignment_merge thread configuration (26e68c2)
• better assignment BC statistics (00187e6)
• configurable min mapping quality (28045ae)
• extending figure width (8bf81c4)
• faster design check (315b402)
• fastq-join implementation (aaf5315)
• latest development for new release (#133) (bdfc557)
• make filtering consistent (5f7a4c5)
• master variant table (6bda47c)
• new final output file with merged replicates (66cf017)
• only link assignment fasta when possible (d7d3822), closes #50
• remove space, speedup BC extraction (70e9bd0)
• replace merging by NGmerge (0aa8cad)
• snakemake 8 compatibility (cf38ed9)
• snakemake 8 ready with workflow profile (d637e1f)
• statistic for assignment workflow (10c3b26)
• using reverese compelment BCs (d009a6c)
• versioned config (#140) (9573b66)

Bug Fixes

• batch size issue in sort (487ba8c)
• correct use of assignment configs (58b64f1)
• corrected qc_report_assoc (afb0127)
• Detach from anaconda (#122) (16bcea2)
• filter config (38ee37e)
• issue with stats and asisgnment (d935fa1)
• memory resources for bbmap (#123) (af93f58)
• paths in assignment quarto (e830dd5)
• plots per insert only used last experiment. not all. (c2fd82b)
• remove illegal characters from reference (0ebee81)
• rename barcoe output header (635f043)
• rule make_master_tables fix (df42845)
• statistic total counts (6381b92)
• typo in report (ace8cca)
• upgrade code to new pandas version (aaea236)
• using correct threads (6dcad7d)
• using multiple fastq inputs in counts (95935cf)

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